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mmu_circRel_382
Basic information of circular RNA
PanCircBase ID:
mmu_circRel_382
mm39_Chr. Position ID:
chr11|23698750|23707047|-
Gene name:
Rel
Transcript:
ENSMUST00000102864.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,4466,8148
Genomic length:
8297
Exon/intron sizes in nt:
1,41,92,149
Flanking exon/introns:
chr11:23695850-23698750|chr11:23707047-23711012
Splice length:
382
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTATGAACTACTATGGAAAAGGAAAAATAAGAATTACATTAGTAACAAAGAATGATCCATATAAGCCTCATCCTCATGATTTAGTTGGAAAAGATTGCAGAGATGGATACTATGAAGCAGAATTTGGACCAGAACGCAGACCTTTGTTTTTTCAAAATTTGGGTATTCGGTGTGTAAAGAAAAAGGAAGTGAAAGAAGCTATTATTTTAAGGATTAGTGCAGGAATCAATCCTTTCAATGTCCCTGAACAGCAGCTGCTGGACATTGAAGACTGCGACCTCAATGTGGTGAGGCTGTGTTTTCAAGTTTTCCTTCCTGATGAACATGGTAACTTCACAACTGCTCTGCCTCCCATTGTTTCTAACCCAATTTATGACAACC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTTCACAACTGCTCTGCCT
59.53
CCAACTAAATCATGAGGATGAGGC
59.48
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACTTCACAACTGCTCTGCCT
60.13
CCAACTAAATCATGAGGATGAGGC
59.48
141
PCR template sequence:
AATGTGGTGAGGCTGTGTTTTCAAGTTTTCCTTCCTGATGAACATGGTAACTTCACAACTGCTCTGCCTCCCATTGTTTCTAACCCAATTTATGACAACCATTATGAACTACTATGGAAAAGGAAAAATAAGAATTACATTAGTAACAAAGAATGATCCATATAAGCCTCATCCTCATGATTTAGTTGGAAAAGATTGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-709(1)
siRNAs for circular RNA silencing
Junction sequence
ATTTATGACAACCATTATGAACTACT
siRNA sets
GTAGTTCATAATGGTTGTC, TAGTTCATAATGGTTGTCA, AGTAGTTCATAATGGTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCREL_382_ORF_1
0.8837
-0.017144315
0.381389458
444
ORF sequence:
ATGAACATGGTAACTTCACAACTGCTCTGCCTCCCATTGTTTCTAACCCAATTTATGACAACCATTATGAACTACTATGGAAAAGGAAAAATAAGAATTACATTAGTAACAAAGAATGATCCATATAAGCCTCATCCTCATGATTTAGTTGGAAAAGATTGCAGAGATGGATACTATGAAGCAGAATTTGGACCAGAACGCAGACCTTTGTTTTTTCAAAATTTGGGTATTCGGTGTGTAAAGAAAAAGGAAGTGAAAGAAGCTATTATTTTAAGGATTAGTGCAGGAATCAATCCTTTCAATGTCCCTGAACAGCAGCTGCTGGACATTGAAGACTGCGACCTCAATGTGGTGAGGCTGTGTTTTCAAGTTTTCCTTCCTGATGAACATGGTAACTTCACAACTGCTCTGCCTCCCATTGTTTCTAACCCAATTTATGACAAC
Peptide sequence:
MNMVTSQLLCLPLFLTQFMTTIMNYYGKGKIRITLVTKNDPYKPHPHDLVGKDCRDGYYEAEFGPERRPLFFQNLGIRCVKKKEVKEAIILRISAGINPFNVPEQQLLDIEDCDLNVVRLCFQVFLPDEHGNFTTALPPIVSNPIYDN
IRESfinder result
IRESfinder score
0.643046309
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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